Alternatives and similar repositories for GASAL2:

Users that are interested in GASAL2 are comparing it to the libraries listed below

• quim0 / WFA-GPU
  GPU implementation of the Wavefront Alignment Algorithm for global, gap-affine, pairwise sequence alginment
  ☆32Updated 6 months ago
• minhhpham / bwa
  Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
  ☆17Updated last year
• asbschmidt / CUDASW4
  CUDASW++4.0: Ultra-fast GPU-based Smith-Waterman Protein Sequence Database Search
  ☆36Updated 4 months ago
• smarco / WFA2-lib
  WFA-lib: Wavefront alignment algorithm library v2
  ☆177Updated last week
• COMBINE-lab / pufferfish
  An efficient index for the colored, compacted, de Bruijn graph
  ☆107Updated 5 months ago
• kaist-ina / BWA-MEME
  BWA-MEME: Faster BWA-MEM2 using learned-index
  ☆117Updated 8 months ago
• lh3 / ksw2
  Global alignment and alignment extension
  ☆131Updated last year
• RWilton / Arioc
  Arioc: GPU-accelerated DNA short-read alignment
  ☆69Updated 2 months ago
• EIHealth-Lab / fast-bonito
  ☆25Updated 4 years ago
• vgteam / graph-genomics-review
  Pangenome graphs (review article on graph-based pangenomic methods)
  ☆71Updated 4 years ago
• jeffdaily / parasail-python
  Python bindings for the parasail C library.
  ☆99Updated 6 months ago
• ratschlab / metagraph
  Scalable annotated de Bruijn graphs for DNA indexing, alignment, and assembly
  ☆118Updated last week
• CMU-SAFARI / RawHash
  RawHash can accurately and efficiently map raw nanopore signals to reference genomes of varying sizes (e.g., from viral to a human genome…
  ☆54Updated 3 months ago
• snugel / cas-offinder
  An ultrafast and versatile algorithm that searches for potential off-target sites of CRISPR/Cas-derived RNA-guided endonucleases.
  ☆90Updated 2 years ago
• OpenHero / gblastn
  G-BLASTN is a GPU-accelerated nucleotide alignment tool based on the widely used NCBI-BLAST.
  ☆65Updated 2 years ago
• ocxtal / libgaba
  Adaptive semi-global banded alignment on string graphs
  ☆65Updated 6 years ago
• NVIDIA-Genomics-Research / DL4VC
  ☆11Updated 5 years ago
• NVIDIA / VariantWorks
  Deep Learning based variant calling toolkit - https://clara-parabricks.github.io/VariantWorks/
  ☆45Updated 2 years ago
• CMU-SAFARI / Scrooge
  Scrooge is a high-performance pairwise sequence aligner based on the GenASM algorithm. Scrooge includes three novel algorithmic improveme…
  ☆37Updated last year
• Martinsos / opal
  SIMD C/C++ library for massive optimal sequence alignment (local/SW, infix, overlap, global)
  ☆38Updated last year
• PASSIONLab / BELLA
  BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper
  ☆49Updated 2 years ago
• ljdursi / poapy
  A simple Partial Order Aligner based on Lee, Grasso and Sharlow (2002), for education/demonstration purposes
  ☆73Updated 9 months ago
• TravisWheelerLab / AvxWindowFmIndex
  A fast, AVX2 and ARM Neon accelerated FM index library
  ☆32Updated 3 months ago
• RagnarGrootKoerkamp / astar-pairwise-aligner
  A pairwise sequence aligner written in Rust
  ☆130Updated this week
• pinellolab / AmpUMI
  Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)
  ☆41Updated 10 months ago
• rvaser / spoa
  SIMD partial order alignment tool/library
  ☆166Updated last year
• refresh-bio / agc
  Assembled Genomes Compressor
  ☆160Updated 4 months ago
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆106Updated 9 months ago
• yangao07 / abPOA
  abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
  ☆119Updated this week
• HKU-BAL / ClairS
  ClairS - a deep-learning method for long-read somatic small variant calling
  ☆82Updated last month